Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold242
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 704627
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.32
Warning! 37713 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:407642 original size:18 final size:19
Alignment explanation
Indices: 407610--407646 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
407600 AATTTCGACG
407610 TTTGGGCACTCAATTTAGT
1 TTTGGGCACTCAATTTAGT
407629 TTTGGGCACT-AATTTAGT
1 TTTGGGCACTCAATTTAGT
407647 CAAAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.43
Consensus pattern (19 bp):
TTTGGGCACTCAATTTAGT
Found at i:411301 original size:17 final size:17
Alignment explanation
Indices: 411279--411326 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
411269 AAATTCTTTT
411279 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
411296 TAAATCACAGAATTCAC
1 TAAATCACAAAATTCAC
*
411313 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
411327 TTCTAAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:413434 original size:30 final size:30
Alignment explanation
Indices: 413340--413434 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 30
413330 ATTTAAAATC
* * *
413340 TAATGTGAGAAAATTTATCAAATTCAAATCCC
1 TAAT-TGAAAAAAATTATCAAATTCAAA-CCT
* * * * *
413372 AATATTG-AAATAATTATCAAGTTTAAAACT
1 TA-ATTGAAAAAAATTATCAAATTCAAACCT
413402 TAATTGAAAAAAATTATCAAATTCAAACCT
1 TAATTGAAAAAAATTATCAAATTCAAACCT
413432 TAA
1 TAA
413435 ATAATAATTG
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
29 4 0.08
30 24 0.50
31 15 0.31
32 3 0.06
33 2 0.04
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (30 bp):
TAATTGAAAAAAATTATCAAATTCAAACCT
Found at i:428841 original size:3 final size:3
Alignment explanation
Indices: 428821--428866 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
428811 TTTGTTAACT
* *
428821 TTA TTA TT- TTA ATG TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
428866 T
1 T
428867 AATATTTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:428887 original size:36 final size:37
Alignment explanation
Indices: 428821--428899 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 37
428811 TTTGTTAACT
* * * *
428821 TTATTATTTTAATGTTATTATTTATTATTATTAT-TA
1 TTATTATTATAATATTATTATTAATAATTATTATGTA
428857 TTATTATTATAATATT-TTCATTAATAATTATTATGTA
1 TTATTATTATAATATTATT-ATTAATAATTATTATGTA
*
428894 ATATTA
1 TTATTA
428900 AATATATGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 2 0.06
36 27 0.75
37 7 0.19
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (37 bp):
TTATTATTATAATATTATTATTAATAATTATTATGTA
Found at i:429165 original size:24 final size:25
Alignment explanation
Indices: 429137--429194 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 25
429127 TATATTTTCC
*
429137 TTTATTTTTATGTTCATTTA-TGTA
1 TTTATTTATATGTTCATTTAGTGTA
* *
429161 TTTATTTATATGTTCCTTTAGTTTA
1 TTTATTTATATGTTCATTTAGTGTA
429186 TTTATTTAT
1 TTTATTTAT
429195 TTATTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (25 bp):
TTTATTTATATGTTCATTTAGTGTA
Found at i:429168 original size:4 final size:4
Alignment explanation
Indices: 429152--429204 Score: 52
Period size: 4 Copynumber: 13.0 Consensus size: 4
429142 TTTTATGTTC
* * * * *
429152 ATTT ATGT ATTT ATTT ATAT GTTC CTTT AGTTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT
429201 ATTT
1 ATTT
429205 GCTATGGAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
4 35 0.90
5 4 0.10
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.68
Consensus pattern (4 bp):
ATTT
Found at i:430029 original size:26 final size:26
Alignment explanation
Indices: 429996--430045 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
429986 AATCACCTTT
429996 TTTTTAATGTTTGTAGGGTTAAGACC
1 TTTTTAATGTTTGTAGGGTTAAGACC
430022 TTTTTAATGTTTGTAGGGTTAAGA
1 TTTTTAATGTTTGTAGGGTTAAGA
430046 ACTCAACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (26 bp):
TTTTTAATGTTTGTAGGGTTAAGACC
Found at i:433028 original size:43 final size:41
Alignment explanation
Indices: 432966--433083 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 41
432956 CAAATCAACC
*
432966 AATTGTTTCGGTTTATCCAATGATGCACTATGCGAGCTAATAT
1 AATTGTTTCGATTTATCCAATGATGCACTATGCG-GC-AATAT
* * *
433009 AATTGTTTCGATTTGTCCAA-GAATGCACCTTATGTGTCAATAT
1 AATTGTTTCGATTTATCCAATG-ATGCA-C-TATGCGGCAATAT
* **
433052 AATTGCTTCGATTTATCTGATGATGCACTATG
1 AATTGTTTCGATTTATCCAATGATGCACTATG
433084 TGTGTCAGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
41 4 0.06
42 2 0.03
43 49 0.78
44 3 0.05
45 5 0.08
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (41 bp):
AATTGTTTCGATTTATCCAATGATGCACTATGCGGCAATAT
Found at i:433088 original size:43 final size:42
Alignment explanation
Indices: 432966--433098 Score: 119
Period size: 43 Copynumber: 3.1 Consensus size: 42
432956 CAAATCAACC
* * *
432966 AATTGTTTCGGTTTATCCAATGATGCACTATGCGAG-CTAATAT
1 AATTGTTTCGATTTAT-CAATGATGCACTATGTGTGTC-AATAT
* *
433009 AATTGTTTCGATTTGTCCAA-GAATGCACCT-TATGTGTCAATAT
1 AATTGTTTCGATTTAT-CAATG-ATGCA-CTATGTGTGTCAATAT
* * *
433052 AATTGCTTCGATTTATCTGATGATGCACTATGTGTGTCAGTAT
1 AATTGTTTCGATTTATC-AATGATGCACTATGTGTGTCAATAT
433095 AATT
1 AATT
433099 ACTCTGGTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
42 4 0.05
43 66 0.89
44 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (42 bp):
AATTGTTTCGATTTATCAATGATGCACTATGTGTGTCAATAT
Found at i:439461 original size:16 final size:16
Alignment explanation
Indices: 439442--439474 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
439432 AGGGTATATT
*
439442 GTGATAATTATCTTAG
1 GTGATAATTACCTTAG
439458 GTGATAATTACCTTAG
1 GTGATAATTACCTTAG
439474 G
1 G
439475 GTTTTTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (16 bp):
GTGATAATTACCTTAG
Found at i:444127 original size:32 final size:33
Alignment explanation
Indices: 444085--444152 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
444075 ATTTTTTTAG
* * *
444085 TTTTTTTTTTTC-AGATT-TTAGAATATTTTCAA
1 TTTTTATTTTTCTAGATTCTTAAAAT-TTTTAAA
444117 TTTTTATTTTTCTAGATTCTTAAAATTTTTAAA
1 TTTTTATTTTTCTAGATTCTTAAAATTTTTAAA
444150 TTT
1 TTT
444153 CATAGTTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 11 0.35
33 14 0.45
34 6 0.19
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.63
Consensus pattern (33 bp):
TTTTTATTTTTCTAGATTCTTAAAATTTTTAAA
Found at i:444153 original size:25 final size:25
Alignment explanation
Indices: 444115--444166 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
444105 GAATATTTTC
**
444115 AATTTTTATTTTTC-TAGATTCTTAA
1 AATTTTTAAATTTCATAGATTC-TAA
*
444140 AATTTTTAAATTTCATAGTTTCTAA
1 AATTTTTAAATTTCATAGATTCTAA
444165 AA
1 AA
444167 GCTATAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (25 bp):
AATTTTTAAATTTCATAGATTCTAA
Found at i:444278 original size:14 final size:14
Alignment explanation
Indices: 444235--444285 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
444225 AAATTTAATA
*
444235 TTTAAAATATTATTT
1 TTTAAATTA-TATTT
*
444250 TTT-AATTTTAGTTT
1 TTTAAATTATA-TTT
444264 TTTAAATTATATTT
1 TTTAAATTATATTT
*
444278 TTAAAATT
1 TTTAAATT
444286 TAAAACTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.07
14 19 0.63
15 9 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
TTTAAATTATATTT
Found at i:444285 original size:29 final size:28
Alignment explanation
Indices: 444213--444286 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
444203 TTAATATCTT
444213 ATATATTTTTGAAAA-TTTAATATTTAAA
1 ATATATTTTT-AAAATTTTAATATTTAAA
* * *
444241 ATATTATTTTT-TAATTTTAGTTTTTTAAA
1 ATA-TATTTTTAAAATTTTA-ATATTTAAA
*
444270 TTATATTTTTAAAATTT
1 ATATATTTTTAAAATTT
444287 AAAACTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.05
28 14 0.38
29 21 0.57
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (28 bp):
ATATATTTTTAAAATTTTAATATTTAAA
Found at i:444287 original size:28 final size:27
Alignment explanation
Indices: 444213--444288 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 27
444203 TTAATATCTT
444213 ATATATTTTTGAAAATTTAATATTTAAA
1 ATATATTTTT-AAAATTTAATATTTAAA
* * * *
444241 ATATTATTTTTTAATTTTAGTTTTTTAAA
1 ATA-TATTTTTAAAATTTA-ATATTTAAA
*
444270 TTATATTTTTAAAATTTAA
1 ATATATTTTTAAAATTTAA
444289 AACTTTTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 22 0.58
29 16 0.42
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (27 bp):
ATATATTTTTAAAATTTAATATTTAAA
Found at i:444908 original size:21 final size:22
Alignment explanation
Indices: 444876--444925 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
444866 NNNNNNNNNT
* *
444876 AAAAT-AT-TTAAACTTTTGTA
1 AAAATCATATTAAACTTCTATA
444896 AAAA-CATATTAAACTTCTATA
1 AAAATCATATTAAACTTCTATA
444917 AAAATCATA
1 AAAATCATA
444926 ACTATTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 6 0.24
21 15 0.60
22 4 0.16
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATCATATTAAACTTCTATA
Found at i:445530 original size:27 final size:27
Alignment explanation
Indices: 445450--445531 Score: 76
Period size: 28 Copynumber: 3.0 Consensus size: 27
445440 TATTTTTTTT
* * *
445450 ACAATTTTTATTATTTTTTAGAATTCTAA
1 ACAAGTTTTATTA-ATTTTAAAATT-TAA
* *
445479 A-ACGTTTTTTTAATTTTAAATATTTAA
1 ACAAGTTTTATTAATTTTAAA-ATTTAA
*
445506 ACAAGTTTTATTAATTTTATAATTTA
1 ACAAGTTTTATTAATTTTAAAATTTA
445532 TTAGATTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
27 15 0.35
28 27 0.63
29 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.55
Consensus pattern (27 bp):
ACAAGTTTTATTAATTTTAAAATTTAA
Found at i:445542 original size:28 final size:28
Alignment explanation
Indices: 445482--445577 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 28
445472 ATTCTAAAAC
* *
445482 GTTTTT-TTAATTTTA-AATATTTAAACAA
1 GTTTTTATTAATTTTATAATA--TATATAA
*
445510 G-TTTTATTAATTTTATAATTTAT-TAGA
1 GTTTTTATTAATTTTATAATATATATA-A
* *
445537 TTTTTTGTT--TTTTATAATATATATAA
1 GTTTTTATTAATTTTATAATATATATAA
*
445563 GTTTTTATAAATTTT
1 GTTTTTATTAATTTT
445578 TTTATAATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
26 20 0.38
27 9 0.17
28 20 0.38
29 3 0.06
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.60
Consensus pattern (28 bp):
GTTTTTATTAATTTTATAATATATATAA
Found at i:445582 original size:31 final size:31
Alignment explanation
Indices: 445544--445607 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
445534 AGATTTTTTG
*
445544 TTTTTTATAA-TATATATAAGTTTTTATAAAT
1 TTTTTTATAATTATA-ATAAGTTTATATAAAT
* *
445575 TTTTTTATAATTTTAATAAGTTTATATCAAT
1 TTTTTTATAATTATAATAAGTTTATATAAAT
445606 TT
1 TT
445608 AAATAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (31 bp):
TTTTTTATAATTATAATAAGTTTATATAAAT
Found at i:445588 original size:9 final size:9
Alignment explanation
Indices: 445511--445670 Score: 50
Period size: 9 Copynumber: 17.7 Consensus size: 9
445501 TTTAAACAAG
445511 TTTTATTAA-
1 TTTTA-TAAT
445520 TTTTATAAT
1 TTTTATAAT
*
445529 TTATTA-GAT
1 TT-TTATAAT
**
445538 TTTT-TGTT
1 TTTTATAAT
445546 TTTTATAAT
1 TTTTATAAT
* *
445555 ATATATAAGT
1 TTTTATAA-T
445565 TTTTATAAATTT
1 TTTTAT-AA--T
445577 TTTTATAAT
1 TTTTATAAT
*
445586 TTTAATAAGT
1 TTTTATAA-T
*
445596 TTATATCAAT
1 TTTTAT-AAT
**
445606 TTAAATAA-
1 TTTTATAAT
445614 TTTT-T-AT
1 TTTTATAAT
*
445621 TTTTATACT
1 TTTTATAAT
445630 TTATCTA-AAT
1 TT-T-TATAAT
445640 TTTTAT--T
1 TTTTATAAT
* *
445647 TTTAATATT
1 TTTTATAAT
*
445656 TTTTATGAT
1 TTTTATAAT
445665 TTTTAT
1 TTTTAT
445671 GGGAAAATAT
Statistics
Matches: 113, Mismatches: 21, Indels: 34
0.67 0.12 0.20
Matches are distributed among these distances:
6 1 0.01
7 11 0.10
8 16 0.14
9 46 0.41
10 24 0.21
11 8 0.07
12 7 0.06
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:447723 original size:23 final size:23
Alignment explanation
Indices: 447680--447723 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
447670 AATTTTATAT
*
447680 TTTTATGATTAAAAAATTAAATA
1 TTTTATGATTAAAAAAGTAAATA
*
447703 TTTTAT-ATTTAAAATAGTAAA
1 TTTTATGA-TTAAAAAAGTAAA
447724 AATAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (23 bp):
TTTTATGATTAAAAAAGTAAATA
Found at i:459511 original size:14 final size:15
Alignment explanation
Indices: 459488--459534 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
459478 AAATTTAATT
*
459488 TTAAAAAAAATTAAA
1 TTAATAAAAATTAAA
459503 TTAATAAAAATATAAA
1 TTAATAAAAAT-TAAA
*
459519 -TATTAAAAATTAAA
1 TTAATAAAAATTAAA
459533 TT
1 TT
459535 TATCATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 4 0.14
15 20 0.71
16 4 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAATAAAAATTAAA
Found at i:459906 original size:20 final size:18
Alignment explanation
Indices: 459854--459906 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
459844 TTTCCGATAA
459854 TTGGATTTGATTTTAGGTT
1 TTGGATTT-ATTTTAGGTT
** *
459873 TTTTATTTAATTTAGGGTT
1 TTGGATTTATTTTA-GGTT
459892 TTAGGATTTATTTTA
1 TT-GGATTTATTTTA
459907 ATAATATGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 5 0.19
19 12 0.46
20 9 0.35
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (18 bp):
TTGGATTTATTTTAGGTT
Found at i:460477 original size:19 final size:19
Alignment explanation
Indices: 460453--460489 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
460443 CTTAGATCAA
*
460453 TTTTTTATTTTTCCTAATT
1 TTTTTTATTTATCCTAATT
460472 TTTTTTATTTATCCTAAT
1 TTTTTTATTTATCCTAAT
460490 CATTAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTATTTATCCTAATT
Found at i:463668 original size:93 final size:94
Alignment explanation
Indices: 463562--463754 Score: 234
Period size: 93 Copynumber: 2.1 Consensus size: 94
463552 TTAATGGTGT
* * *
463562 AAAAA-GGCTCTCAAACTTTTTCAAAAAAA-CAATTAAG-CCTTTG-CTTTTTCTTTTTTTGCAC
1 AAAAAGGGCTCTCAAAATTTTTCAAAAAAAGCAATTAAGCCCCTAGTC-TTTT-TTTTTTTGCAC
* * * *
463623 TGAATTGGGTATTTGAACTGTCAAAATGCATA
64 T-AATTGGGTACTTAAACTGCCAAAATACATA
*
463655 AAAAAGGGC-CTCAAAATTTTTCAAAAAAAGCAATTGAGCCCCTAGTCTTTTTTTTTTTGCACTA
1 AAAAAGGGCTCTCAAAATTTTTCAAAAAAAGCAATTAAGCCCCTAGTCTTTTTTTTTTTGCACTA
* *
463719 ATTGGGTACTTAAACTGCCAAATTACATC
66 ATTGGGTACTTAAACTGCCAAAATACATA
463748 AAAAAGG
1 AAAAAGG
463755 CTAAGGGTGG
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
93 55 0.64
94 22 0.26
95 8 0.09
96 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (94 bp):
AAAAAGGGCTCTCAAAATTTTTCAAAAAAAGCAATTAAGCCCCTAGTCTTTTTTTTTTTGCACTA
ATTGGGTACTTAAACTGCCAAAATACATA
Found at i:465831 original size:4 final size:4
Alignment explanation
Indices: 465824--465942 Score: 238
Period size: 4 Copynumber: 29.8 Consensus size: 4
465814 TATCTGTGTG
465824 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
465872 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
465920 TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGT
465943 GTTTTACCTG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 115 1.00
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:466432 original size:9 final size:9
Alignment explanation
Indices: 466418--466449 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
466408 GATAACTGAT
466418 AACAAAAAA
1 AACAAAAAA
466427 AAC-AAAAA
1 AACAAAAAA
466435 AACAAAAAA
1 AACAAAAAA
466444 AA-AAAA
1 AACAAAA
466450 GGTTGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 12 0.55
9 10 0.45
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (9 bp):
AACAAAAAA
Found at i:466440 original size:17 final size:16
Alignment explanation
Indices: 466418--466449 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
466408 GATAACTGAT
466418 AACAAAAAAAACAAAAA
1 AACAAAAAAAA-AAAAA
466435 AACAAAAAAAAAAAA
1 AACAAAAAAAAAAAA
466450 GGTTGGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (16 bp):
AACAAAAAAAAAAAAA
Found at i:467565 original size:18 final size:18
Alignment explanation
Indices: 467544--467589 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
467534 TTAACTGAAC
*
467544 TAATCGAATTATCCGAAT
1 TAATCGAATTACCCGAAT
*
467562 TAATCAAATTACCCGAAT
1 TAATCGAATTACCCGAAT
*
467580 TAACCGAATT
1 TAATCGAATT
467590 GAATCACTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (18 bp):
TAATCGAATTACCCGAAT
Found at i:467720 original size:13 final size:13
Alignment explanation
Indices: 467702--467726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
467692 TTATGATTGG
467702 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
467715 ATTGGGTTGGGT
1 ATTGGGTTGGGT
467727 TAGATATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:468938 original size:8 final size:8
Alignment explanation
Indices: 468925--468951 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
468915 TGGAGAGGCT
468925 TGGGGCAG
1 TGGGGCAG
468933 TGGGGCAG
1 TGGGGCAG
468941 TGGGGCAG
1 TGGGGCAG
468949 TGG
1 TGG
468952 AATCACTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.63, T:0.15
Consensus pattern (8 bp):
TGGGGCAG
Found at i:473453 original size:23 final size:24
Alignment explanation
Indices: 473408--473454 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
473398 AAATGGGCCT
* * *
473408 AAAAATTTGTCCAAGCTCGGCCCG
1 AAAAAATTGTCCAAGCCCAGCCCG
473432 AAAAAATTG-CCAAGCCCAGCCCG
1 AAAAAATTGTCCAAGCCCAGCCCG
473455 GCCCGGCCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.15
Consensus pattern (24 bp):
AAAAAATTGTCCAAGCCCAGCCCG
Found at i:473840 original size:9 final size:8
Alignment explanation
Indices: 473811--473842 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
473801 CTTTTATTAA
473811 TTTAAAAT
1 TTTAAAAT
473819 TTTAAAAT
1 TTTAAAAT
473827 TTTAAAATT
1 TTTAAAA-T
473836 TTTAAAA
1 TTTAAAA
473843 AGTTAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTTAAAAT
Found at i:473848 original size:17 final size:17
Alignment explanation
Indices: 473812--473851 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
473802 TTTTATTAAT
**
473812 TTAAAA-TTTTAAAATT
1 TTAAAATTTTTAAAAAG
473828 TTAAAATTTTTAAAAAG
1 TTAAAATTTTTAAAAAG
473845 TTAAAAT
1 TTAAAAT
473852 GAAAAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAAATTTTTAAAAAG
Found at i:475470 original size:19 final size:21
Alignment explanation
Indices: 475417--475470 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
475407 ACGGATTGAC
*
475417 AATTTGAGCTACAATATTATG
1 AATTTGAGCTACAATATCATG
*
475438 AATATT-AACTACAATA-CAT-
1 AAT-TTGAGCTACAATATCATG
475457 AATTTGAGCTACAA
1 AATTTGAGCTACAA
475471 CAAAATTTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 2 0.07
19 10 0.36
20 2 0.07
21 12 0.43
22 2 0.07
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.33
Consensus pattern (21 bp):
AATTTGAGCTACAATATCATG
Found at i:493886 original size:29 final size:29
Alignment explanation
Indices: 493832--493889 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
493822 GGAAAACGAA
* *
493832 CCATTTCGGTAAATAATTACATAAAGGGC
1 CCATTTCGGTAAATAATTAAAAAAAGGGC
*
493861 CCATTTCGGTAAAT-TTTGAAAAAAAGGGC
1 CCATTTCGGTAAATAATT-AAAAAAAGGGC
493890 TTTTTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (29 bp):
CCATTTCGGTAAATAATTAAAAAAAGGGC
Found at i:502830 original size:13 final size:13
Alignment explanation
Indices: 502812--502872 Score: 77
Period size: 13 Copynumber: 4.7 Consensus size: 13
502802 CTCAAAATTT
502812 TCAAAAGCACTTC
1 TCAAAAGCACTTC
502825 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* *
502838 TCGAAAGCACTTT
1 TCAAAAGCACTTC
* * *
502851 TCTACAGCACTTT
1 TCAAAAGCACTTC
502864 TCAAAAGCA
1 TCAAAAGCA
502873 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:506866 original size:186 final size:186
Alignment explanation
Indices: 506552--506929 Score: 747
Period size: 186 Copynumber: 2.0 Consensus size: 186
506542 ACTGTTACTA
506552 AATTATTTATTTCTCGAGCTACAGAACTCCAAATGAAAAACCGTAAATTTTACCTGAAACTAGAC
1 AATTATTTATTTCTCGAGCTACAGAACTCCAAATGAAAAACCGTAAATTTTACCTGAAACTAGAC
506617 TCACATAATTTCTTACCATAGAAATTTCAGAATTTTTGGTCTAGCCAGTTAATACAGTTTATTCA
66 TCACATAATTTCTTACCATAGAAATTTCAGAATTTTTGGTCTAGCCAGTTAATACAGTTTATTCA
*
506682 TTAAATATTCCCCTATTTCACTATTCGATAACTCTGACCCCTCTTCACTAAAAATT
131 TTAAATATTCCCCTATTTCACTATTCGACAACTCTGACCCCTCTTCACTAAAAATT
506738 AATTATTTATTTCTCGAGCTACAGAACTCCAAATGAAAAACCGTAAATTTTACCTGAAACTAGAC
1 AATTATTTATTTCTCGAGCTACAGAACTCCAAATGAAAAACCGTAAATTTTACCTGAAACTAGAC
506803 TCACATAATTTCTTACCATAGAAATTTCAGAATTTTTGGTCTAGCCAGTTAATACAGTTTATTCA
66 TCACATAATTTCTTACCATAGAAATTTCAGAATTTTTGGTCTAGCCAGTTAATACAGTTTATTCA
506868 TTAAATATTCCCCTATTTCACTATTCGACAACTCTGACCCCTCTTCACTAAAAATT
131 TTAAATATTCCCCTATTTCACTATTCGACAACTCTGACCCCTCTTCACTAAAAATT
506924 AATTAT
1 AATTAT
506930 CTCATTGCAC
Statistics
Matches: 191, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 191 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.35
Consensus pattern (186 bp):
AATTATTTATTTCTCGAGCTACAGAACTCCAAATGAAAAACCGTAAATTTTACCTGAAACTAGAC
TCACATAATTTCTTACCATAGAAATTTCAGAATTTTTGGTCTAGCCAGTTAATACAGTTTATTCA
TTAAATATTCCCCTATTTCACTATTCGACAACTCTGACCCCTCTTCACTAAAAATT
Found at i:507489 original size:45 final size:44
Alignment explanation
Indices: 507434--507571 Score: 122
Period size: 45 Copynumber: 3.1 Consensus size: 44
507424 AACACCACCC
* *
507434 TTATAATCAATAGTACTCAGTGAAATCAGCACATAGCAACTACCT
1 TTATACTCAATGGTACTCAGTGAAATCAGCACATAGCAA-TACCT
*** * *
507479 TTATACTCAATGGTACAGGGTGAATTCTGCACATAGCAAT-CACT
1 TTATACTCAATGGTACTCAGTGAAATCAGCACATAGCAATAC-CT
*
507523 TATATAAC-CATTGGTA-TCCA-TGAAATCAGCACATAGCAATCACCT
1 T-TAT-ACTCAATGGTACT-CAGTGAAATCAGCACATAGCAAT-ACCT
507568 TTAT
1 TTAT
507572 TTTCATTAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.01
44 25 0.34
45 45 0.61
46 3 0.04
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (44 bp):
TTATACTCAATGGTACTCAGTGAAATCAGCACATAGCAATACCT
Found at i:508210 original size:50 final size:50
Alignment explanation
Indices: 508135--508368 Score: 405
Period size: 50 Copynumber: 4.7 Consensus size: 50
508125 AAAACGGGCC
508135 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCG
508185 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCG
* * ** *
508235 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATGTCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCG
508285 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCG
* *
508335 ATGTCATGTCCCAGACATGGTCTTACACTGGCAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCAC
508369 ACTCACTGCC
Statistics
Matches: 172, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 172 1.00
ACGTcount: A:0.18, C:0.33, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCG
Found at i:512803 original size:624 final size:624
Alignment explanation
Indices: 511615--512863 Score: 2446
Period size: 624 Copynumber: 2.0 Consensus size: 624
511605 GCACATGCTG
*
511615 TTGCTGGTTCTATTGCATCCTATTTTGTGGAGAGGTTAGTGGCATCTTTTTTGTTGGAGGTTCAC
1 TTGCTGGTTCTATTGCATCCTATTTTGTGGAGAGGTTAGTGGCATCTTTTTTGTTGAAGGTTCAC
*
511680 CTTTGTTGATTTGTTACCAACATTTCAAAGGGTTAAAAATTGGTATTAAACTTTACTATTTGCAT
66 CTTTGTTGATATGTTACCAACATTTCAAAGGGTTAAAAATTGGTATTAAACTTTACTATTTGCAT
511745 TCTCTTTTGTGATGAACAACACTCTGCATGTGGGTTATAGCGTGTATGGCCTTCAAATTGTTAGG
131 TCTCTTTTGTGATGAACAACACTCTGCATGTGGGTTATAGCGTGTATGGCCTTCAAATTGTTAGG
511810 GCCTATGTATGTATACTGATAAAGTATTTGCTTGACCATGCATATAGTTGTGGGCAGTGGTTGTG
196 GCCTATGTATGTATACTGATAAAGTATTTGCTTGACCATGCATATAGTTGTGGGCAGTGGTTGTG
511875 TATATGAGCTCTTATACTGAATGAAGGCATGTATTTCCCAGCATGCATTGGTATAAATTAGAGAC
261 TATATGAGCTCTTATACTGAATGAAGGCATGTATTTCCCAGCATGCATTGGTATAAATTAGAGAC
511940 AGGTTGTGCCTGTAGAGACACATTGAAACTCATTAATGTCTTTTCAGGTATAAGTTCAATAAGAA
326 AGGTTGTGCCTGTAGAGACACATTGAAACTCATTAATGTCTTTTCAGGTATAAGTTCAATAAGAA
512005 TTGCTTGGTGGTTCAGTGGTCTGGAGACAATCCTAACAGTTTAGCAGGTCCATGACTCTCTTCAT
391 TTGCTTGGTGGTTCAGTGGTCTGGAGACAATCCTAACAGTTTAGCAGGTCCATGACTCTCTTCAT
512070 CTATTATTAATTGAATTCTCTATGTGACTTAGATCTCCACTACTCAAAATTGTTCTAGTTTTCTA
456 CTATTATTAATTGAATTCTCTATGTGACTTAGATCTCCACTACTCAAAATTGTTCTAGTTTTCTA
512135 ATCAACCCCTAATGTATGTTTATAGCAGTCTCCTCTCAATATGCACTTAAAGTCTATAGTTAAAT
521 ATCAACCCCTAATGTATGTTTATAGCAGTCTCCTCTCAATATGCACTTAAAGTCTATAGTTAAAT
512200 TTAGTATTATTCTCTCCTTCAAATATTCAATCTATCACA
586 TTAGTATTATTCTCTCCTTCAAATATTCAATCTATCACA
512239 TTGCTGGTTCTATTGCATCCTATTTTGTGGAGAGGTTAGTGGCATCTTTTTTGTTGAAGGTTCAC
1 TTGCTGGTTCTATTGCATCCTATTTTGTGGAGAGGTTAGTGGCATCTTTTTTGTTGAAGGTTCAC
* *
512304 TTTTGTTGATATGTTACCGACATTTCAAAGGGTTAAAAATTGGTATTAAACTTTACTATTTGCAT
66 CTTTGTTGATATGTTACCAACATTTCAAAGGGTTAAAAATTGGTATTAAACTTTACTATTTGCAT
512369 TC-CTTTTTGTGATGAACAACACTCTGCATGTGGGTTATAGCGTGTATGGCCTTCAAATTGTTAG
131 TCTC-TTTTGTGATGAACAACACTCTGCATGTGGGTTATAGCGTGTATGGCCTTCAAATTGTTAG
512433 GGCCTATGTATGTATACTGATAAAGTATTTGCTTGACCATGCATATAGTTGTGGGCAGTGGTTGT
195 GGCCTATGTATGTATACTGATAAAGTATTTGCTTGACCATGCATATAGTTGTGGGCAGTGGTTGT
512498 GTATATGAGCTCTTATACTGAATGAAGGCATGTATTTCCCAGCATGCATTGGTATAAATTAGAGA
260 GTATATGAGCTCTTATACTGAATGAAGGCATGTATTTCCCAGCATGCATTGGTATAAATTAGAGA
512563 CAGGTTGTGCCTGTAGAGACACATTGAAACTCATTAATGTCTTTTCAGGTATAAGTTCAATAAGA
325 CAGGTTGTGCCTGTAGAGACACATTGAAACTCATTAATGTCTTTTCAGGTATAAGTTCAATAAGA
512628 ATTGCTTGGTGGTTCAGTGGTCTGGAGACAATCCTAACAGTTTAGCAGGTCCATGACTCTCTTCA
390 ATTGCTTGGTGGTTCAGTGGTCTGGAGACAATCCTAACAGTTTAGCAGGTCCATGACTCTCTTCA
512693 TCTATTATTAATTGAATTCTCTATGTGACTTAGATCTCCACTACTCAAAATTGTTCTAGTTTTCT
455 TCTATTATTAATTGAATTCTCTATGTGACTTAGATCTCCACTACTCAAAATTGTTCTAGTTTTCT
512758 AATCAACCCCTAATGTATGTTTATAGCAGTCTCCTCTCAATATGCACTTAAAGTCTATAGTTAAA
520 AATCAACCCCTAATGTATGTTTATAGCAGTCTCCTCTCAATATGCACTTAAAGTCTATAGTTAAA
512823 TTTAGTATTATTCTCTCCTTCAAATATTCAATCTATCACA
585 TTTAGTATTATTCTCTCCTTCAAATATTCAATCTATCACA
512863 T
1 T
512864 AGAAGTGAAT
Statistics
Matches: 620, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
623 1 0.00
624 619 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (624 bp):
TTGCTGGTTCTATTGCATCCTATTTTGTGGAGAGGTTAGTGGCATCTTTTTTGTTGAAGGTTCAC
CTTTGTTGATATGTTACCAACATTTCAAAGGGTTAAAAATTGGTATTAAACTTTACTATTTGCAT
TCTCTTTTGTGATGAACAACACTCTGCATGTGGGTTATAGCGTGTATGGCCTTCAAATTGTTAGG
GCCTATGTATGTATACTGATAAAGTATTTGCTTGACCATGCATATAGTTGTGGGCAGTGGTTGTG
TATATGAGCTCTTATACTGAATGAAGGCATGTATTTCCCAGCATGCATTGGTATAAATTAGAGAC
AGGTTGTGCCTGTAGAGACACATTGAAACTCATTAATGTCTTTTCAGGTATAAGTTCAATAAGAA
TTGCTTGGTGGTTCAGTGGTCTGGAGACAATCCTAACAGTTTAGCAGGTCCATGACTCTCTTCAT
CTATTATTAATTGAATTCTCTATGTGACTTAGATCTCCACTACTCAAAATTGTTCTAGTTTTCTA
ATCAACCCCTAATGTATGTTTATAGCAGTCTCCTCTCAATATGCACTTAAAGTCTATAGTTAAAT
TTAGTATTATTCTCTCCTTCAAATATTCAATCTATCACA
Found at i:524984 original size:21 final size:23
Alignment explanation
Indices: 524960--525007 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
524950 AAAAAAGAAG
*
524960 AAAATAGC-AAGAAAA-TAATAA
1 AAAATAGCAAAAAAAAGTAATAA
524981 AAAATAGCAAAAAAAAGTAATAA
1 AAAATAGCAAAAAAAAGTAATAA
525004 AAAA
1 AAAA
525008 ACAGGAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 8 0.33
22 6 0.25
23 10 0.42
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.12
Consensus pattern (23 bp):
AAAATAGCAAAAAAAAGTAATAA
Found at i:525501 original size:16 final size:17
Alignment explanation
Indices: 525475--525506 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
525465 CAAAACTATT
525475 ATTTTAGAAAATTTTAA
1 ATTTTAGAAAATTTTAA
525492 ATTTTA-AAAATTTTA
1 ATTTTAGAAAATTTTA
525507 TAAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTTTAGAAAATTTTAA
Found at i:525521 original size:27 final size:27
Alignment explanation
Indices: 525475--525543 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
525465 CAAAACTATT
*
525475 ATTTTAGAAA-ATTTTAAATTTTAAAA
1 ATTTTATAAATATTTTAAATTTTAAAA
*
525501 ATTTTATAAATATTTTTAATTTTAAAA
1 ATTTTATAAATATTTTAAATTTTAAAA
*
525528 ATTATATTAAATATTT
1 ATTTTA-TAAATATTT
525544 GAAAATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 9 0.24
27 20 0.53
28 9 0.24
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (27 bp):
ATTTTATAAATATTTTAAATTTTAAAA
Found at i:525835 original size:186 final size:187
Alignment explanation
Indices: 525510--525882 Score: 739
Period size: 186 Copynumber: 2.0 Consensus size: 187
525500 AATTTTATAA
525510 ATATTTTTAATTTTAAAAATTATATTAAATATTTGAAAATTATTTTGAATTATTTTGTAATTATT
1 ATATTTTTAATTTTAAAAATTATATTAAATATTTGAAAATTATTTTGAATTATTTTGTAATTATT
525575 GTTAAGAGAGAGACCAATTTATTTATTTTCAAAGTTGACAGTGACCAAAAGAGTATTTACATCAA
66 GTTAAGAGAGAGACCAATTTATTTATTTTCAAAGTTGACAGTGACCAAAAGAGTATTTACATCAA
525640 TTTGTTATTCAAAATATTCAAGTTATTTGAATTGTGAAATTCAACTCGACTCAAACT
131 TTTGTTATTCAAAATATTCAAGTTATTTGAATTGTGAAATTCAACTCGACTCAAACT
525697 ATATTTTTAA-TTTAAAAATTATATTAAATATTTGAAAATTATTTTGAATTATTTTGTAATTATT
1 ATATTTTTAATTTTAAAAATTATATTAAATATTTGAAAATTATTTTGAATTATTTTGTAATTATT
525761 GTTAAGAGAGAGACCAATTTATTTATTTTCAAAGTTGACAGTGACCAAAAGAGTATTTACATCAA
66 GTTAAGAGAGAGACCAATTTATTTATTTTCAAAGTTGACAGTGACCAAAAGAGTATTTACATCAA
525826 TTTGTTATTCAAAATATTCAAGTTATTTGAATTGTGAAATTCAACTCGACTCAAACT
131 TTTGTTATTCAAAATATTCAAGTTATTTGAATTGTGAAATTCAACTCGACTCAAACT
525883 CGAATTGAGT
Statistics
Matches: 186, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
186 176 0.95
187 10 0.05
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.42
Consensus pattern (187 bp):
ATATTTTTAATTTTAAAAATTATATTAAATATTTGAAAATTATTTTGAATTATTTTGTAATTATT
GTTAAGAGAGAGACCAATTTATTTATTTTCAAAGTTGACAGTGACCAAAAGAGTATTTACATCAA
TTTGTTATTCAAAATATTCAAGTTATTTGAATTGTGAAATTCAACTCGACTCAAACT
Found at i:527608 original size:82 final size:82
Alignment explanation
Indices: 527471--527679 Score: 418
Period size: 82 Copynumber: 2.5 Consensus size: 82
527461 AAGAATGGCC
527471 AATAATTCTAGTTTGCTAAATAACTTTAACTAGCCCCTTAACTACAGGAGGTCAGGATACATGGG
1 AATAATTCTAGTTTGCTAAATAACTTTAACTAGCCCCTTAACTACAGGAGGTCAGGATACATGGG
527536 TTCTTATTAGCTTGCTA
66 TTCTTATTAGCTTGCTA
527553 AATAATTCTAGTTTGCTAAATAACTTTAACTAGCCCCTTAACTACAGGAGGTCAGGATACATGGG
1 AATAATTCTAGTTTGCTAAATAACTTTAACTAGCCCCTTAACTACAGGAGGTCAGGATACATGGG
527618 TTCTTATTAGCTTGCTA
66 TTCTTATTAGCTTGCTA
527635 AATAATTCTAGTTTGCTAAATAACTTTAACTAGCCCCTTAACTAC
1 AATAATTCTAGTTTGCTAAATAACTTTAACTAGCCCCTTAACTAC
527680 TCACCTGAGT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 127 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (82 bp):
AATAATTCTAGTTTGCTAAATAACTTTAACTAGCCCCTTAACTACAGGAGGTCAGGATACATGGG
TTCTTATTAGCTTGCTA
Found at i:536150 original size:22 final size:22
Alignment explanation
Indices: 536122--536165 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
536112 TATGCTTCTC
*
536122 GACTTTCCTTGTTTCTGCATGA
1 GACTTTCCTTGCTTCTGCATGA
*
536144 GACTTTCCTTGCTTCTGTATGA
1 GACTTTCCTTGCTTCTGCATGA
536166 CATCCCTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (22 bp):
GACTTTCCTTGCTTCTGCATGA
Found at i:538321 original size:22 final size:21
Alignment explanation
Indices: 538284--538334 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
538274 AATGTAAAAC
538284 TAAAAAAA-ATTCAAAAATTA
1 TAAAAAAATATTCAAAAATTA
* *
538304 TAAAAAAATATATTAAAAATTG
1 TAAAAAAATAT-TCAAAAATTA
538326 TAAAAAAAT
1 TAAAAAAAT
538335 TTTAGAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 8 0.30
21 2 0.07
22 17 0.63
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAAAAATATTCAAAAATTA
Found at i:540703 original size:17 final size:17
Alignment explanation
Indices: 540666--540705 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
540656 TAATTCTCAA
*
540666 ATAAATAAATTATGATT
1 ATAAATAAATTATGATG
* *
540683 ATAATTAAATTATTATG
1 ATAAATAAATTATGATG
540700 ATAAAT
1 ATAAAT
540706 TATGAAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
ATAAATAAATTATGATG
Found at i:552732 original size:18 final size:18
Alignment explanation
Indices: 552698--552748 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
552688 AGGGGTGTGC
552698 AAAATTCGGTTAAAACCGAA
1 AAAATTCGGTT--AACCGAA
*
552718 AAAATTCGGTTAACCGAC
1 AAAATTCGGTTAACCGAA
**
552736 TGAATTCGGTTAA
1 AAAATTCGGTTAA
552749 TCAGTCGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 17 0.61
20 11 0.39
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (18 bp):
AAAATTCGGTTAACCGAA
Found at i:552976 original size:7 final size:7
Alignment explanation
Indices: 552964--553008 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
552954 CCAAGAATAA
552964 TTCATGT
1 TTCATGT
552971 TTCATGTT
1 TTCATG-T
552979 TTCATGT
1 TTCATGT
**
552986 TTCATAC
1 TTCATGT
*
552993 TGCATGT
1 TTCATGT
553000 TTCATGT
1 TTCATGT
553007 TT
1 TT
553009 TCTTCTGTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.16, C:0.16, G:0.13, T:0.56
Consensus pattern (7 bp):
TTCATGT
Found at i:553280 original size:17 final size:17
Alignment explanation
Indices: 553258--553318 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
553248 TGTTAAAGAC
553258 TTATGTAATATTTTTAA
1 TTATGTAATATTTTTAA
* ***
553275 TTATGTAGTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
*
553294 CTTATGTAATATTTTTAG
1 -TTATGTAATATTTTTAA
553312 TTATGTA
1 TTATGTA
553319 GTAATTCAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:553302 original size:37 final size:37
Alignment explanation
Indices: 553252--553360 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
553242 TTTATGTGTT
553252 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
* *
553289 AAAGACTTATGTAATATTTTTAGTTATGTAGTAATTC
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
* * *
553326 AAAGACTTGTGTAATTTTTTTAATTATATAGTGAT
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGAT
553361 CGGTCAAGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (37 bp):
AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
Found at i:553381 original size:9 final size:9
Alignment explanation
Indices: 553359--553429 Score: 99
Period size: 9 Copynumber: 8.0 Consensus size: 9
553349 TTATATAGTG
*
553359 ATCGGTCAA
1 ATCGGTTAA
*
553368 GTCGGTTAA
1 ATCGGTTAA
553377 ATCGGTTAA
1 ATCGGTTAA
*
553386 GTCGGTTAA
1 ATCGGTTAA
553395 ATCGGTT-A
1 ATCGGTTAA
553403 ATCGGTTAA
1 ATCGGTTAA
*
553412 ATAGGTTAA
1 ATCGGTTAA
553421 ATCGGTTAA
1 ATCGGTTAA
553430 TTTTTAACCA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
8 8 0.15
9 46 0.85
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.32
Consensus pattern (9 bp):
ATCGGTTAA
Found at i:553418 original size:26 final size:26
Alignment explanation
Indices: 553369--553430 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
553359 ATCGGTCAAG
* *
553369 TCGGTTAAATCGGTTAAGTCGGTTAAA
1 TCGGTT-AATCGGTTAAATAGGTTAAA
553396 TCGGTTAATCGGTTAAATAGGTTAAA
1 TCGGTTAATCGGTTAAATAGGTTAAA
553422 TCGGTTAAT
1 TCGGTTAAT
553431 TTTTAACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 27 0.82
27 6 0.18
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (26 bp):
TCGGTTAATCGGTTAAATAGGTTAAA
Found at i:553606 original size:12 final size:12
Alignment explanation
Indices: 553589--553613 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
553579 AACTAATTCG
553589 GGTCGGTTAACC
1 GGTCGGTTAACC
553601 GGTCGGTTAACC
1 GGTCGGTTAACC
553613 G
1 G
553614 AATGCACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:562227 original size:46 final size:46
Alignment explanation
Indices: 562158--562312 Score: 195
Period size: 46 Copynumber: 3.6 Consensus size: 46
562148 TTTGAGTACT
* *
562158 TCTGATCAAGAGATAAAGCGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
562204 TCTGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
562240 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
562286 TCTGATCAAGTGAAAAAGTGATAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTG
562313 NNNNNNNNNN
Statistics
Matches: 92, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
36 30 0.33
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 54 0.59
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:562234 original size:36 final size:36
Alignment explanation
Indices: 562194--562312 Score: 130
Period size: 36 Copynumber: 3.0 Consensus size: 36
562184 GGTAGCTTTA
562194 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
562230 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
562275 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
562312 G
1 G
562313 NNNNNNNNNN
Statistics
Matches: 69, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
36 31 0.45
37 2 0.03
40 2 0.03
42 2 0.03
45 2 0.03
46 30 0.43
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:562295 original size:82 final size:82
Alignment explanation
Indices: 562158--562312 Score: 292
Period size: 82 Copynumber: 1.9 Consensus size: 82
562148 TTTGAGTACT
*
562158 TCTGATCAAGAGATAAAGCGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGCGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
562223 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
562240 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGCGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
562305 GATAAGTG
66 GATAAGTG
562313 NNNNNNNNNN
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGCGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:568625 original size:20 final size:21
Alignment explanation
Indices: 568600--568646 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
568590 TATTTCAATA
568600 TTTTAAGTATTTTAT-ATTAT
1 TTTTAAGTATTTTATAATTAT
*
568620 TTTTAA-TTTTTTATAATTAT
1 TTTTAAGTATTTTATAATTAT
*
568640 TATTAAG
1 TTTTAAG
568647 AAATACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTTAAGTATTTTATAATTAT
Found at i:569520 original size:35 final size:35
Alignment explanation
Indices: 569481--569552 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
569471 TTAATCATGA
569481 GATCGTTTTTTCATGACAATTTTGTCAAATAATTT
1 GATCGTTTTTTCATGACAATTTTGTCAAATAATTT
569516 GATCGTTTTTTCATGACAATTTTGTCAAATAATTT
1 GATCGTTTTTTCATGACAATTTTGTCAAATAATTT
569551 GA
1 GA
569553 CCTTATTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (35 bp):
GATCGTTTTTTCATGACAATTTTGTCAAATAATTT
Found at i:570294 original size:19 final size:18
Alignment explanation
Indices: 570268--570305 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
570258 AAAATCTTAT
*
570268 AAAGTAAAAATACAAATA
1 AAAGTAAAAATAAAAATA
570286 AAAGATAAAAATAAAAATA
1 AAAG-TAAAAATAAAAATA
570305 A
1 A
570306 TTAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAGTAAAAATAAAAATA
Found at i:570299 original size:6 final size:6
Alignment explanation
Indices: 570272--570305 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
570262 TCTTATAAAG
*
570272 TAAAAA TACAAA TAAAAGA TAAAAA TAAAAA TAA
1 TAAAAA TAAAAA TAAAA-A TAAAAA TAAAAA TAA
570306 TTAAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:570299 original size:13 final size:12
Alignment explanation
Indices: 570272--570305 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
570262 TCTTATAAAG
*
570272 TAAAAATACAAA
1 TAAAAATAAAAA
570284 TAAAAGATAAAAA
1 TAAAA-ATAAAAA
570297 TAAAAATAA
1 TAAAAATAA
570306 TTAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (12 bp):
TAAAAATAAAAA
Found at i:570783 original size:22 final size:22
Alignment explanation
Indices: 570757--570804 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
570747 CTTTAATCAA
570757 TTATTCAAAAGTACCACAAGAT
1 TTATTCAAAAGTACCACAAGAT
570779 TTATTCAAAAGTACCACAAGAT
1 TTATTCAAAAGTACCACAAGAT
570801 TTAT
1 TTAT
570805 CTTGTTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (22 bp):
TTATTCAAAAGTACCACAAGAT
Found at i:573473 original size:15 final size:15
Alignment explanation
Indices: 573453--573481 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
573443 TCACTTCAAT
573453 TACTGACAAAAGTAC
1 TACTGACAAAAGTAC
573468 TACTGACAAAAGTA
1 TACTGACAAAAGTA
573482 ATTGATGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (15 bp):
TACTGACAAAAGTAC
Found at i:574654 original size:13 final size:13
Alignment explanation
Indices: 574636--574660 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
574626 TCAAAGGAGC
574636 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
574649 AAAAAGAAAAAA
1 AAAAAGAAAAAA
574661 ACAATAGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:597350 original size:3 final size:3
Alignment explanation
Indices: 597342--597385 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
597332 GGCAGTTTCT
* * *
597342 CAC CAC CAC CAC CAC CTC CAC CAC CTTC CTC CAC CAC CAC CAC C
1 CAC CAC CAC CAC CAC CAC CAC CAC C-AC CAC CAC CAC CAC CAC C
597386 TCCTAATCGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 34 0.94
4 2 0.06
ACGTcount: A:0.25, C:0.66, G:0.00, T:0.09
Consensus pattern (3 bp):
CAC
Found at i:604478 original size:16 final size:16
Alignment explanation
Indices: 604457--604488 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
604447 CAACTGCAAA
604457 CACCAAACAGGAAAAG
1 CACCAAACAGGAAAAG
604473 CACCAAACAGGAAAAG
1 CACCAAACAGGAAAAG
604489 AACAGTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.19, T:0.00
Consensus pattern (16 bp):
CACCAAACAGGAAAAG
Found at i:608369 original size:63 final size:63
Alignment explanation
Indices: 608291--608417 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
608281 GTAGCTCTCT
* *
608291 GGCTAATTATCCTATTCAACACTCGTTTGTTGAAAATTTTGTATCATGTAAAATTTAATATGA
1 GGCTAATTATCCTATTCAACACTAGTTTGTTGAAAATTTTGTATCATGTAAAAATTAATATGA
608354 GGCTAATTATCCTATTCAACACTAGTTTGTTGAAAATTTTGTATCATGTAAAAATTAATATGA
1 GGCTAATTATCCTATTCAACACTAGTTTGTTGAAAATTTTGTATCATGTAAAAATTAATATGA
608417 G
1 G
608418 TTATTAAACA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (63 bp):
GGCTAATTATCCTATTCAACACTAGTTTGTTGAAAATTTTGTATCATGTAAAAATTAATATGA
Found at i:612160 original size:54 final size:54
Alignment explanation
Indices: 612100--612208 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
612090 AACCAAACAA
* *
612100 TGTTCAAATTCTTTGGCACCGCGTGGCATCCTAAATGATGGATCTCTACAATTC
1 TGTTCAAATTCTATGGCACCGCATGGCATCCTAAATGATGGATCTCTACAATTC
* * *
612154 TGTTCAAATTCTATGGCACCGTATGGCATCCTAAGTGATGGATCTGTACAATTC
1 TGTTCAAATTCTATGGCACCGCATGGCATCCTAAATGATGGATCTCTACAATTC
612208 T
1 T
612209 CGAGGTACTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (54 bp):
TGTTCAAATTCTATGGCACCGCATGGCATCCTAAATGATGGATCTCTACAATTC
Found at i:619667 original size:12 final size:11
Alignment explanation
Indices: 619643--619698 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 11
619633 AACATGTTTC
619643 TTTTATTTTAT
1 TTTTATTTTAT
619654 TTTTATTCTTATT
1 TTTTATT-TTA-T
* *
619667 TTTTAATTTCT
1 TTTTATTTTAT
619678 TCATTTATTTTA-
1 T--TTTATTTTAT
619690 TTTTATTTT
1 TTTTATTTT
619699 TTGCTTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
10 8 0.22
11 9 0.24
12 6 0.16
13 14 0.38
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:622856 original size:25 final size:25
Alignment explanation
Indices: 622768--622853 Score: 91
Period size: 30 Copynumber: 3.2 Consensus size: 25
622758 TAAATGTATA
*
622768 TGTTTTATACATTGCCGAATTTGAT
1 TGTTTTATATATTGCCGAATTTGAT
* *
622793 TAATTATAGATATATATTGTCGAATTTGAT
1 T-GTT-T---TATATATTGCCGAATTTGAT
622823 TGTTTTATATATTGCCGAATTTGAAT
1 TGTTTTATATATTGCCGAATTTG-AT
622849 TGTTT
1 TGTTT
622854 ATAGTTATAC
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
25 18 0.36
26 9 0.18
27 1 0.02
28 1 0.02
29 2 0.04
30 19 0.38
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (25 bp):
TGTTTTATATATTGCCGAATTTGAT
Found at i:622862 original size:31 final size:29
Alignment explanation
Indices: 622772--623334 Score: 169
Period size: 31 Copynumber: 18.8 Consensus size: 29
622762 TGTATATGTT
*
622772 TTATACATTGCCGAATTTGATTAATTATAG
1 TTATACATTGCCGAATTTGATT-GTTATAG
* * *
622802 ATATATATTGTCGAATTTGATTG-T-T--
1 TTATACATTGCCGAATTTGATTGTTATAG
*
622827 TTATATATTGCCGAATTTGAATTGTTTATAG
1 TTATACATTGCCGAATTTG-ATTG-TTATAG
* * * *
622858 TTATACATTGTCGAAATTGATTTGCATATGG
1 TTATACATTGCCGAATTTGA-TTG-TTATAG
* *
622889 TTATA-AGTTGCTGAA-TTGATT-TGTACATG
1 TTATACA-TTGCCGAATTTGATTGT-TATA-G
* * * *
622918 ATTATACATTGCTGAAATTAATTTGTATATGG
1 -TTATACATTGCCGAATTTGA-TTGT-TATAG
** * *
622950 TTATACATTGTTGAAATTGAATTGTATATGG
1 TTATACATTGCCGAATTTG-ATTGT-TATAG
* *
622981 ATATA-AGTTGCCGAA-TTGATTCGTATATGG
1 TTATACA-TTGCCGAATTTGATT-GT-TATAG
* * * * *
623011 TTGTACATTGCTGAAATTAATTTGTATATGG
1 TTATACATTGCCGAATTTGA-TTGT-TATAG
* ** * *
623042 TTATATATTGTTGAAATTGAATTGTATATGG
1 TTATACATTGCCGAATTTG-ATTGT-TATAG
*
623073 ATATA-AGTTGCCGAA-TTGATT-TGTATATG
1 TTATACA-TTGCCGAATTTGATTGT-TATA-G
* * ** * *
623102 ACTATACATTGCTGAAATTAAATTGTACATGG
1 -TTATACATTGCCG-AATTTGATTGT-TATAG
** * *
623134 TTATACATTGTTGAAATTGAATTGTATATGG
1 TTATACATTGCCGAATTTG-ATTGT-TATAG
* * *
623165 ATATA-AGTTGCTGAA-TTGATTCGTATATGG
1 TTATACA-TTGCCGAATTTGATT-GT-TATAG
* *
623195 TTATACATTGCTGAATTTGA-T-TTGTA-
1 TTATACATTGCCGAATTTGATTGTTATAG
*
623221 -TATACATTGCCGAACTTT-ATTCGTATATGG
1 TTATACATTGCCGAA-TTTGATT-GT-TATAG
* *
623251 TTATACATTGTCGAA-TTGATTCGTATATGG
1 TTATACATTGCCGAATTTGATT-GT-TATAG
623281 TTATACATTGCCGAATTTGATT-TGTATATG
1 TTATACATTGCCGAATTTGATTGT-TATA-G
*
623311 ATTATACATTGCCGAACTTGATTG
1 -TTATACATTGCCGAATTTGATTG
623335 GTTTCGTGCA
Statistics
Matches: 422, Mismatches: 65, Indels: 90
0.73 0.11 0.16
Matches are distributed among these distances:
25 31 0.07
26 8 0.02
27 3 0.01
28 10 0.02
29 22 0.05
30 128 0.30
31 202 0.48
32 12 0.03
33 6 0.01
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (29 bp):
TTATACATTGCCGAATTTGATTGTTATAG
Found at i:622928 original size:61 final size:60
Alignment explanation
Indices: 622827--623333 Score: 407
Period size: 61 Copynumber: 8.3 Consensus size: 60
622817 TTTGATTGTT
* * * * *
622827 TTATATATTGCCGAATTTGAATTGTTTAT-AGTTATACATTGTCGAAATTGATTTGCATATGG
1 TTATACATTGCTGAA-TTGATTTGTATATGA-TTATACATTG-CGAAATTGATTTGTATATGG
* *
622889 TTATA-AGTTGCTGAATTGATTTGTACATGATTATACATTGCTGAAATTAATTTGTATATGG
1 TTATACA-TTGCTGAATTGATTTGTATATGATTATACATTGC-GAAATTGATTTGTATATGG
* * *
622950 TTATACATTGTTGAAATTGAATTGTATATGGA-TATA-AGTTGCCG-AATTGATTCGTATATGG
1 TTATACATTGCTG-AATTGATTTGTATAT-GATTATACA-TTG-CGAAATTGATTTGTATATGG
* * * * * *
623011 TTGTACATTGCTGAAATTAATTTGTATATGGTTATATATTGTTGAAATTGAATTGTATATGG
1 TTATACATTGCTG-AATTGATTTGTATATGATTATACATTG-CGAAATTGATTTGTATATGG
* * * * * *
623073 ATATA-AGTTGCCGAATTGATTTGTATATGACTATACATTGCTGAAATTAAATTGTACATGG
1 TTATACA-TTGCTGAATTGATTTGTATATGATTATACATTGC-GAAATTGATTTGTATATGG
* * *
623134 TTATACATTGTTGAAATTGAATTGTATATGGA-TATA-AGTTGCTG-AATTGATTCGTATATGG
1 TTATACATTGCTG-AATTGATTTGTATAT-GATTATACA-TTGC-GAAATTGATTTGTATATGG
* * *
623195 TTATACATTGCTGAATTTGATTTG----T-A-TATACATTGCCGAACTTTATTCGTATATGG
1 TTATACATTGCTGAA-TTGATTTGTATATGATTATACATTG-CGAAATTGATTTGTATATGG
* * * *
623251 TTATACATTG-TCGAATTGATTCGTATATGGTTATACATTGCCGAATTTGATTTGTATATGA
1 TTATACATTGCT-GAATTGATTTGTATATGATTATACATTG-CGAAATTGATTTGTATATGG
*
623312 TTATACATTGCCGAACTTGATT
1 TTATACATTGCTGAA-TTGATT
623334 GGTTTCGTGC
Statistics
Matches: 366, Mismatches: 49, Indels: 60
0.77 0.10 0.13
Matches are distributed among these distances:
55 17 0.05
56 30 0.08
57 1 0.00
59 1 0.00
60 4 0.01
61 218 0.60
62 90 0.25
63 5 0.01
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (60 bp):
TTATACATTGCTGAATTGATTTGTATATGATTATACATTGCGAAATTGATTTGTATATGG
Found at i:622953 original size:92 final size:92
Alignment explanation
Indices: 622848--623331 Score: 590
Period size: 92 Copynumber: 5.3 Consensus size: 92
622838 CGAATTTGAA
* * * * * *
622848 TTGTTTATAGTTATACATTGTCGAAATTGATTTGCATATGGTTATAAGTTGCTGAATTGATTTGT
1 TTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGATATAAGTTGCTGAATTGATTCGT
* *
622913 ACATGATTATACATTGCTGAAATTAAT
66 ATATGGTTATACATTGCTGAAATTAAT
* *
622940 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGT
1 TTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGATATAAGTTGCTGAATTGATTCGT
*
623005 ATATGGTTGTACATTGCTGAAATTAAT
66 ATATGGTTATACATTGCTGAAATTAAT
* * * *
623032 TTGTATATGGTTATATATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGATATAAGTTGCTGAATTGATTCGT
** *
623097 ATATGACTATACATTGCTGAAATTAAA
66 ATATGGTTATACATTGCTGAAATTAAT
* *
623124 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCTGAATTGATTCGT
1 TTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGATATAAGTTGCTGAATTGATTCGT
* *
623189 ATATGGTTATACATTGCTGAATTTGAT
66 ATATGGTTATACATTGCTGAAATTAAT
* * * *
623216 TTG--TA----TATACATTGCCGAACTT-TATTCGTATATGGTTATACA-TTG-TCGAATTGATT
1 TTGTATATGGTTATACATTGTCGAAATTGAATT-GTATATGGATATA-AGTTGCT-GAATTGATT
* * *
623272 CGTATATGGTTATACATTGCCGAATTTGAT
63 CGTATATGGTTATACATTGCTGAAATTAAT
* * *
623302 TTGTATATGATTATACATTGCCGAACTTGA
1 TTGTATATGGTTATACATTGTCGAAATTGA
623332 TTGGTTTCGT
Statistics
Matches: 348, Mismatches: 34, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
85 4 0.01
86 70 0.20
87 1 0.00
88 2 0.01
90 1 0.00
92 270 0.78
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (92 bp):
TTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGATATAAGTTGCTGAATTGATTCGT
ATATGGTTATACATTGCTGAAATTAAT
Found at i:623224 original size:25 final size:25
Alignment explanation
Indices: 623196--623248 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
623186 CGTATATGGT
* *
623196 TATACATTGCTGAA-TTTGATTTGTA
1 TATACATTGCCGAACTTT-ATTCGTA
623221 TATACATTGCCGAACTTTATTCGTA
1 TATACATTGCCGAACTTTATTCGTA
623246 TAT
1 TAT
623249 GGTTATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (25 bp):
TATACATTGCCGAACTTTATTCGTA
Found at i:623553 original size:44 final size:43
Alignment explanation
Indices: 623442--623603 Score: 234
Period size: 43 Copynumber: 3.7 Consensus size: 43
623432 GGTGTGATTT
* *
623442 CGTGTAGGACCATGTCTGGGACATCGGTATCGAAGTAAGGAAA
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGAAGTAAGGAAA
* * *
623485 CGTGTAGGACCATGTCTGGGACATTGGCATCAAAGTAAGGAAA
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGAAGTAAGGAAA
* * * *
623528 CGTGTAAAGACCATGCCTGGGACATTGGAATCGAAGTAAGAAAA
1 CGTGT-AAGACCATGTCTGGGACATCGGCATCGAAGTAAGGAAA
623572 CGTGTAAGACCATGTCTGGGACATCGGCATCG
1 CGTGTAAGACCATGTCTGGGACATCGGCATCG
623604 TATATGATTC
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 69 0.64
44 38 0.36
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.20
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATCGGCATCGAAGTAAGGAAA
Found at i:633371 original size:3 final size:3
Alignment explanation
Indices: 633363--633390 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
633353 CTTTGTAAGC
633363 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
633391 ACATACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:639294 original size:12 final size:12
Alignment explanation
Indices: 639258--639296 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
639248 ATCTTTAATA
639258 ATTTATATATAT
1 ATTTATATATAT
639270 A--TATATATAT
1 ATTTATATATAT
*
639280 ATTTATATTTAT
1 ATTTATATATAT
639292 ATTTA
1 ATTTA
639297 CCTTGTCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 10 0.42
12 14 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTATATATAT
Found at i:640474 original size:44 final size:44
Alignment explanation
Indices: 640426--640549 Score: 119
Period size: 44 Copynumber: 3.1 Consensus size: 44
640416 TATATAAATT
640426 AAATTCATTTAGTAATTTTTTACACTCAAATAAAAGTTGAAGCC
1 AAATTCATTTAGTAATTTTTTACACTCAAATAAAAGTTGAAGCC
** * * *
640470 AAATTTTTTTA-AAATATTTTA-A-T-ATAT-AAA-TT------
1 AAATTCATTTAGTAATTTTTTACACTCAAATAAAAGTTGAAGCC
640502 AAATTCATTTAGTAATTTTTTACACTCAAATAAAAGTTGAAGCC
1 AAATTCATTTAGTAATTTTTTACACTCAAATAAAAGTTGAAGCC
640546 AAAT
1 AAAT
640550 CACAATTTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 24
0.63 0.11 0.26
Matches are distributed among these distances:
32 9 0.16
33 8 0.14
34 1 0.02
35 1 0.02
36 3 0.05
37 3 0.05
38 4 0.07
39 3 0.05
40 3 0.05
41 1 0.02
42 1 0.02
43 8 0.14
44 13 0.22
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (44 bp):
AAATTCATTTAGTAATTTTTTACACTCAAATAAAAGTTGAAGCC
Found at i:640476 original size:76 final size:76
Alignment explanation
Indices: 640396--640549 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 76
640386 TTAGTGTATT
640396 ATTTTTTAAAAATATTTTAATATATAAATTAAATTCATTTAGTAATTTTTTACACTCAAATAAAA
1 ATTTTTTAAAAATATTTTAATATATAAATTAAATTCATTTAGTAATTTTTTACACTCAAATAAAA
640461 GTTGAAGCCAA
66 GTTGAAGCCAA
*
640472 ATTTTTTTAAAATATTTTAATATATAAATTAAATTCATTTAGTAATTTTTTACACTCAAATAAAA
1 ATTTTTTAAAAATATTTTAATATATAAATTAAATTCATTTAGTAATTTTTTACACTCAAATAAAA
640537 GTTGAAGCCAA
66 GTTGAAGCCAA
640548 AT
1 AT
640550 CACAATTTTA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (76 bp):
ATTTTTTAAAAATATTTTAATATATAAATTAAATTCATTTAGTAATTTTTTACACTCAAATAAAA
GTTGAAGCCAA
Found at i:644250 original size:18 final size:18
Alignment explanation
Indices: 644227--644268 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
644217 TTATTATTTT
*
644227 TAAAATTT-ACTATTAAAA
1 TAAAATTTAAATATT-AAA
644245 TAAAATTTAAATATTAAA
1 TAAAATTTAAATATTAAA
644263 TAAAAT
1 TAAAAT
644269 AGCCGTGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATTTAAATATTAAA
Found at i:644766 original size:19 final size:19
Alignment explanation
Indices: 644742--644778 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
644732 TATTGTTAAT
*
644742 ATATTTATAATTATAATAG
1 ATATTTATAATTAAAATAG
*
644761 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
644779 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAG
Found at i:644833 original size:16 final size:16
Alignment explanation
Indices: 644787--644836 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
644777 TAAAATAAAA
644787 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
644804 A-A--AATAATAAATT
1 ATATTAATAATTTATT
644817 ATATTAATAATTTATT
1 ATATTAATAATTTATT
644833 ATAT
1 ATAT
644837 GACTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:644844 original size:29 final size:30
Alignment explanation
Indices: 644768--644833 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
644758 TAGATATTTA
*
644768 TTATTAAAATAAAATAAA-AATATTAAATAAT
1 TTATTAAAAT--AATAAATTATATTAAATAAT
644799 TTATTAAAATAATAAATTATATT-AATAAT
1 TTATTAAAATAATAAATTATATTAAATAAT
644828 TTATTA
1 TTATTA
644834 TATGACTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 18 0.55
30 5 0.15
31 10 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
TTATTAAAATAATAAATTATATTAAATAAT
Found at i:649557 original size:2 final size:2
Alignment explanation
Indices: 649550--649580 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
649540 TGTGTCTAGC
649550 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
649581 GATTAGTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:658587 original size:17 final size:17
Alignment explanation
Indices: 658556--658596 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
658546 ATGTGTACCA
*
658556 ATAAATAATTTAAAAATG
1 ATAAA-AATTCAAAAATG
*
658574 ATAAAAATTCAAAAATT
1 ATAAAAATTCAAAAATG
658591 ATAAAA
1 ATAAAA
658597 GTTAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
ATAAAAATTCAAAAATG
Found at i:658606 original size:17 final size:16
Alignment explanation
Indices: 658565--658607 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
658555 AATAAATAAT
*
658565 TTAAAAATGATAAAAA
1 TTAAAAATTATAAAAA
*
658581 TTCAAAAATTATAAAAG
1 TT-AAAAATTATAAAAA
658598 TTAATAAATT
1 TTAA-AAATT
658608 TTTTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (16 bp):
TTAAAAATTATAAAAA
Found at i:658734 original size:22 final size:22
Alignment explanation
Indices: 658709--658751 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
658699 ATCAAATTTA
658709 AAAAAATAAAAATTAAATTATT
1 AAAAAATAAAAATTAAATTATT
* * *
658731 AAAAACTAAAATTTACATTAT
1 AAAAAATAAAAATTAAATTAT
658752 GGATTAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAAATAAAAATTAAATTATT
Found at i:661591 original size:4 final size:4
Alignment explanation
Indices: 661577--661606 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
661567 CTTTAATCCC
661577 TACA TTACA TACA TACA TACA TACA TACA T
1 TACA -TACA TACA TACA TACA TACA TACA T
661607 TTGGATATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (4 bp):
TACA
Found at i:661932 original size:4 final size:4
Alignment explanation
Indices: 661923--661950 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
661913 TTTTATTGCA
661923 AGGC AGGC AGGC AGGC AGGC AGGC AGGC
1 AGGC AGGC AGGC AGGC AGGC AGGC AGGC
661951 GTGAGTCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.50, T:0.00
Consensus pattern (4 bp):
AGGC
Found at i:667692 original size:5 final size:5
Alignment explanation
Indices: 667684--667709 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
667674 GAGATGGAAT
667684 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
667710 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:667709 original size:26 final size:26
Alignment explanation
Indices: 667658--667709 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
667648 TGAAGTTTTC
* * *
667658 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
667684 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
667710 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:668376 original size:9 final size:9
Alignment explanation
Indices: 668362--668398 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
668352 TATAGTTTGA
668362 TATTCGAAT
1 TATTCGAAT
668371 TATTCGAAT
1 TATTCGAAT
*
668380 TATTCGAGT
1 TATTCGAAT
*
668389 TATTTGAAT
1 TATTCGAAT
668398 T
1 T
668399 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:668468 original size:9 final size:9
Alignment explanation
Indices: 668451--668481 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
668441 TCGAGTTGAT
668451 TCGAATAAC
1 TCGAATAAC
*
668460 TCGATTAAC
1 TCGAATAAC
668469 TCGAATAAC
1 TCGAATAAC
668478 TCGA
1 TCGA
668482 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:680037 original size:14 final size:14
Alignment explanation
Indices: 680018--680044 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
680008 GAAATGAATG
680018 AAAGAAAAAAAGAA
1 AAAGAAAAAAAGAA
680032 AAAGAAAAAAAGA
1 AAAGAAAAAAAGA
680045 GTTGATGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAGAA
Found at i:685276 original size:20 final size:20
Alignment explanation
Indices: 685248--685285 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
685238 TATTTTCTAG
*
685248 TAAATCATTTTACAGAAAAA
1 TAAAACATTTTACAGAAAAA
*
685268 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
685286 TCATTTTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAA
Found at i:685288 original size:34 final size:35
Alignment explanation
Indices: 685234--685300 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
685224 ATATTAGCAG
* *
685234 AAAATATTTTCTAGTAAATCATTTTACAGAAAAAT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAAT
*
685269 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
685301 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAAT
Found at i:696138 original size:3 final size:3
Alignment explanation
Indices: 696130--696165 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
696120 TTTACATAGC
696130 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
696166 GATATAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:696240 original size:3 final size:3
Alignment explanation
Indices: 696232--696264 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
696222 TACATAGCTT
696232 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
696265 GATATAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:696304 original size:99 final size:100
Alignment explanation
Indices: 696122--696321 Score: 393
Period size: 99 Copynumber: 2.0 Consensus size: 100
696112 ACATCATTTT
696122 TACATAGCTTATTATTATTATTATTATTATTATTATTATTATTAGATATAATGATAAATTTAGTC
1 TACATAGCTTATTATTATTATTATTATTATTATTATTATTATTAGATATAATGATAAATTTAGTC
696187 TTTAATGTTTATTTATTCTACACTTTTATTTTTAC
66 TTTAATGTTTATTTATTCTACACTTTTATTTTTAC
696222 TACATAGCTT-TTATTATTATTATTATTATTATTATTATTATTAGATATAATGATAAATTTAGTC
1 TACATAGCTTATTATTATTATTATTATTATTATTATTATTATTAGATATAATGATAAATTTAGTC
696286 TTTAATGTTTATTTATTCTACACTTTTATTTTTAC
66 TTTAATGTTTATTTATTCTACACTTTTATTTTTAC
696321 T
1 T
696322 TTTTAGTCAT
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 90 0.90
100 10 0.10
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (100 bp):
TACATAGCTTATTATTATTATTATTATTATTATTATTATTATTAGATATAATGATAAATTTAGTC
TTTAATGTTTATTTATTCTACACTTTTATTTTTAC
Found at i:703643 original size:40 final size:39
Alignment explanation
Indices: 703594--703707 Score: 97
Period size: 40 Copynumber: 2.8 Consensus size: 39
703584 GTTTAGTTAT
703594 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAAAC
1 TAAT-ATTATT-TTACTTAGTATTATTGTTAGTAAAAAAAC
** * **
703635 TAATATTATTATGGC-TAGTTATTA-GGATTAGTAAAAACTC
1 TAATATTATT-TTACTTAG-TATTATTG-TTAGTAAAAAAAC
* *
703675 TAATTATTATTTTAGTTAGTATGATTGTTAGTA
1 TAA-TATTATTTTACTTAGTATTATTGTTAGTA
703708 TTTTTTTTCC
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
39 4 0.07
40 38 0.67
41 15 0.26
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (39 bp):
TAATATTATTTTACTTAGTATTATTGTTAGTAAAAAAAC
Found at i:703899 original size:150 final size:151
Alignment explanation
Indices: 703710--704625 Score: 1133
Period size: 150 Copynumber: 6.0 Consensus size: 151
703700 TGTTAGTATT
703710 TTTTTTC-CGAATTTTATTACTTTAAAAAATATACTATTTTTC-AATTTTATTATTTTACATTAT
1 TTTTTTCTCGAATTTTATTACTTTAAAAAATATACTA-TTTTCGAATTTTATTATTTTACATTAT
703773 TTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTAAAAAAACCC
65 TTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTAAAAAAACCC
*
703838 TTATTTCGGCCCTTTACTCGTA
130 TTATTTCGGCCCTTTGCTCGTA
* **
703860 TTTTTTCTCGAGTTTTATTACTTT-AAAAATATACTATTTTATAATTTTATTATTTTACATTATT
1 TTTTTTCTCGAATTTTATTACTTTAAAAAATATACTATTTTCGAATTTTATTATTTTACATTATT
* *
703924 TTAGTACATTATGTTTGAAATTTAAATACATTTATTGTGTTTTTTAAATAAATTAAAAAAAAACC
66 TTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATT--AAAAAAACC
* *
703989 ATTATTTCGACCCTTTGCTCGTA
129 CTTATTTCGGCCCTTTGCTCGTA
* * *
704012 TTTTTT-TCCTGAGTTTAATTACTTTAAAAAATATACTATTTTCTAATTTTATTATTTTACATTA
1 TTTTTTCT-C-GAATTTTATTACTTTAAAAAATATACTATTTTCGAATTTTATTATTTTACATTA
*
704076 TTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTG-TTTTTAAATAAATT-AAAAAATC
64 TTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTAAAAAAACC
704139 CTTATTTCGGCCCTTTGCTCGTA
129 CTTATTTCGGCCCTTTGCTCGTA
* * *
704162 TTTTTTCTC-AATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACTTT
1 TTTTTTCTCGAATTTTATTACTTT--A-AAAAATATACTATTTTCGAATTTTATTATTTTACATT
* * * * * * * *
704226 ATTTTAATACATTATGTTTAAAATGT--ATTAGTTAATTAT-TTTTTTAACA-AAATTTAGTAAA
63 ATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAA-ATAAA-TTA--AAA
* *
704287 AAACCCTTATTTCAGCCCTTTGTTCGTA
124 AAACCCTTATTTCGGCCCTTTGCTCGTA
* *
704315 TTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTATTTTACATTA
1 -TTTTTTCTCGAATTTTATTAC-TTTAAAAAATATACTATTTTCGAATTTTATTATTTTACATTA
*
704380 TTTTAGTACATTATGTTTGAAATTTAAACAAATTTAGTGTGTTTTTTAAATAAATTTTAAAAAAA
64 TTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAA--TT-AAAAAA
* *
704445 ACCCTTATTTCGGCCTTTTACTCGTA
126 ACCCTTATTTCGGCCCTTTGCTCGTA
* * * * * *
704471 TTTTTTCCCAAAATTTATTACTTTCAATAAAA-ATATTATTTTCGTATTTTATTATTTTACTTTA
1 TTTTTTCTCGAATTTTATTACTTT-AA-AAAATATACTATTTTCGAATTTTATTATTTTACATTA
* * * * * * ** * *
704535 TTTTAGTATATTATGTTTGAAATGT--ATTAATTAATTCT-TTTTTTAAATTTAGTAAAAAAACT
64 TTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTAAAAAAACC
*
704597 CTTATTTCGGCCCTTTGTTCGTA
129 CTTATTTCGGCCCTTTGCTCGTA
704620 TTTTTT
1 TTTTTT
704626 TC
Statistics
Matches: 669, Mismatches: 69, Indels: 57
0.84 0.09 0.07
Matches are distributed among these distances:
148 12 0.02
149 56 0.08
150 133 0.20
151 73 0.11
152 47 0.07
153 120 0.18
154 88 0.13
155 91 0.14
156 45 0.07
157 3 0.00
158 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (151 bp):
TTTTTTCTCGAATTTTATTACTTTAAAAAATATACTATTTTCGAATTTTATTATTTTACATTATT
TTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTAAAAAAACCCT
TATTTCGGCCCTTTGCTCGTA
Found at i:704344 original size:304 final size:304
Alignment explanation
Indices: 703699--704627 Score: 1348
Period size: 304 Copynumber: 3.1 Consensus size: 304
703689 GTTAGTATGA
* *
703699 TTGTTAGTATTTTTTTTCCGAATTTTATTACTTTAAAAAATATACTATTTT-TCAATTTTATTAT
1 TTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAAAAAATATACTATTTTCT-AATTTTATTAT
703763 TTTACATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATT
65 TTTACATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATT
* *
703828 AAAAAAACCCTTATTTCGGCCCTTTACTCGTATTTTTTCTCGAGTTTTATTAC-TT---TAAAAA
130 AAAAAAACCCTTATTTCGGCCCTTTACTCGTATTTTTTCTCAAATTTTATTACTTTCAATAAAAA
* * * * *
703889 TATACTATTTT-ATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAATAC
195 TATATTATTTTCGT-ATTTTATTATTTTACTTTATTTTAGTACATTATGTTTGAAATGT-ATTA-
* * ** *
703953 ATTTATTGTGTTTTTTAAATAAA-TTAAAAAAAAACCATTATTTCGACCCT
257 ATTAATTAT-TTTTTTAAA-AAATTTAGTAAAAAACCCTTATTTCG-CCCT
* * * *
704003 TTGCTCGTATTTTTTTCCTGAGTTTAATTACTTTAAAAAATATACTATTTTCTAATTTTATTATT
1 TTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAAAAAATATACTATTTTCTAATTTTATTATT
704068 TTACATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTG-TTTTTAAATAAATT-
66 TTACATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTA
* *
704131 AAAAAATCCTTATTTCGGCCCTTTGCTCGTATTTTTTCTC-AATTTTATTACTTTCAATAAAAAT
131 AAAAAACCCTTATTTCGGCCCTTTACTCGTATTTTTTCTCAAATTTTATTACTTTCAATAAAAAT
* * *
704195 ATATTATTTTCGTATTTTATTATTTTACTTTATTTTAATACATTATGTTTAAAATGTATTAGTTA
196 ATATTATTTTCGTATTTTATTATTTTACTTTATTTTAGTACATTATGTTTGAAATGTATTAATTA
704260 ATTATTTTTTTAACAAAATTTAGTAAAAAACCCTTATTTCAGCCCT
261 ATTATTTTTTTAA-AAAATTTAGTAAAAAACCCTTATTTC-GCCCT
704306 TTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTAT
1 TTGTTCGTATTTTTTTCCCGAATTTTATTAC-TTTAAAAAATATACTATTTTCTAATTTTATTAT
*
704371 TTTACATTATTTTAGTACATTATGTTTGAAATTTAAACAAATTTAGTGTGTTTTTTAAATAAATT
65 TTTACATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAA--
* * *
704436 TTAAAAAAAACCCTTATTTCGGCCTTTTACTCGTATTTTTTCCCAAAATTTATTACTTTCAAT-A
128 TT-AAAAAAACCCTTATTTCGGCCCTTTACTCGTATTTTTTCTCAAATTTTATTACTTTCAATAA
*
704500 AAA-ATATTATTTTCGTATTTTATTATTTTACTTTATTTTAGTATATTATGTTTGAAATGTATTA
192 AAATATATTATTTTCGTATTTTATTATTTTACTTTATTTTAGTACATTATGTTTGAAATGTATTA
* *
704564 ATTAATTCTTTTTTT---AAATTTAGTAAAAAAACTCTTATTTCGGCCCT
257 ATTAATTATTTTTTTAAAAAATTTAGT-AAAAAACCCTTATTTC-GCCCT
704611 TTGTTCGTATTTTTTTC
1 TTGTTCGTATTTTTTTC
Statistics
Matches: 569, Mismatches: 39, Indels: 33
0.89 0.06 0.05
Matches are distributed among these distances:
301 10 0.02
302 51 0.09
303 70 0.12
304 201 0.35
305 106 0.19
306 1 0.00
307 2 0.00
308 71 0.12
309 40 0.07
310 17 0.03
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (304 bp):
TTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAAAAAATATACTATTTTCTAATTTTATTATT
TTACATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTA
AAAAAACCCTTATTTCGGCCCTTTACTCGTATTTTTTCTCAAATTTTATTACTTTCAATAAAAAT
ATATTATTTTCGTATTTTATTATTTTACTTTATTTTAGTACATTATGTTTGAAATGTATTAATTA
ATTATTTTTTTAAAAAATTTAGTAAAAAACCCTTATTTCGCCCT
Found at i:704603 original size:458 final size:450
Alignment explanation
Indices: 703710--704625 Score: 1211
Period size: 458 Copynumber: 2.0 Consensus size: 450
703700 TGTTAGTATT
703710 TTTTTTCCGAATTTTATTACTTTAAAAAATATACTATTTTTCAATTTTATTATTTTACATTATTT
1 TTTTTTCCGAATTTTATTACTTTAAAAAATATACTATTTTTCAATTTTATTATTTTACATTATTT
* * * * *
703775 TAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTAAAAAAACCCTT
66 TAATACATTATGTTTAAAATGT-AATAAATTAAGTATGTTTTTTAAATAAATTAAAAAAACCCTT
* * *
703840 ATTTCGGCCCTTTACTCGTATTTTTTCTCGAGTTTTATTACTTTAAAAATATACTATTTTATAAT
130 ATTTCAGCCCTTTACTCGTATTTTTTCCCGAATTTTATTACTTTAAAAATATACTATTTTATAAT
* * *
703905 TTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAATACATTTATTGTGTTTTTTA
195 TTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAACAAATTTAGTGTGTTTTTTA
* * ** *
703970 AATAAATTAAAAAAAAACCATTATTTCGACCCTTTGCTCGTATTTTTTTCCTGAGTTTAATTACT
260 AATAAATTAAAAAAAAACCATTATTTCGACCCTTTACTCGTATTTTTTCCCAAAATTTAATTACT
*
704035 TTAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT
325 TTAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
* * * *
704100 TAAATAAATTTAGTGTGTTTTTAAATAAATTAAAAAATCCTTATTTCGGCCCTTTGCTCGTA
390 T-AATAAATTAAGTCTGTTTTTAAATAAAGTAAAAAAACCTTATTTCGGCCCTTTGCTCGTA
* * *
704162 TTTTTTCTC-AATTTTATTACTTTCAATAAAAATATATTA-TTTTCGTATTTTATTATTTTACTT
1 TTTTTTC-CGAATTTTATTACTTT--A-AAAAATATACTATTTTTC-AATTTTATTATTTTACAT
* * *
704225 TATTTTAATACATTATGTTTAAAATGT-ATTAGTTAATTAT-TTTTTTAACA-AAATTTAGTAAA
61 TATTTTAATACATTATGTTTAAAATGTAATAAATTAAGTATGTTTTTTAA-ATAAA-TTA--AAA
**
704287 AAACCCTTATTTCAGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATAC
122 AAACCCTTATTTCAGCCCTTTACTCGTA-TTTTTTCCCGAATTTTATTAC-TTT-AAAAATATAC
*
704352 TATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAACAAATTTAG
184 TATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAACAAATTTAG
* * * *
704417 TGTGTTTTTTAAATAAATTTTAAAAAAAACCCTTATTTCGGCCTTTTACTCGTATTTTTTCCCAA
249 TGTGTTTTTTAAATAAA-TTAAAAAAAAACCATTATTTCGACCCTTTACTCGTATTTTTTCCCAA
* * *
704482 AATTT-ATTACTTTCAATAAAA-ATATTATTTTCGT-ATTTTATTATTTTACTTTATTTTAGTAT
313 AATTTAATTACTTT-AA-AAAATATACTATTTTC-TAATTTTATTATTTTACATTATTTTAGTAC
* * * **
704544 ATTATGTTTGAAATGT-ATTAATTAATTCTTTTTTTAAATTTAGTAAAAAAACTCTTATTTCGGC
375 ATTATGTTTGAAATGTAATAAATTAAGTCTGTTTTTAAATAAAGTAAAAAAAC-CTTATTTCGGC
*
704608 CCTTTGTTCGTA
439 CCTTTGCTCGTA
704620 TTTTTT
1 TTTTTT
704626 TC
Statistics
Matches: 404, Mismatches: 43, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
452 32 0.08
453 13 0.03
454 6 0.01
455 79 0.20
456 19 0.05
457 30 0.07
458 124 0.31
459 96 0.24
460 5 0.01
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (450 bp):
TTTTTTCCGAATTTTATTACTTTAAAAAATATACTATTTTTCAATTTTATTATTTTACATTATTT
TAATACATTATGTTTAAAATGTAATAAATTAAGTATGTTTTTTAAATAAATTAAAAAAACCCTTA
TTTCAGCCCTTTACTCGTATTTTTTCCCGAATTTTATTACTTTAAAAATATACTATTTTATAATT
TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAACAAATTTAGTGTGTTTTTTAA
ATAAATTAAAAAAAAACCATTATTTCGACCCTTTACTCGTATTTTTTCCCAAAATTTAATTACTT
TAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
AATAAATTAAGTCTGTTTTTAAATAAAGTAAAAAAACCTTATTTCGGCCCTTTGCTCGTA
Done.